Journal Article

DZNE-2020-06594

http://join2-wiki.gsi.de/foswiki/pub/Main/Artwork/join2_logo100x88.png Protein-RNA interactions: structural characteristics and hotspot amino acids.

Krüger, D. M. (First author)DZNE* ; Neubacher, S. ; Grossmann, T. N. (Corresponding author)

2018
HighWire Press Stanford, Calif.

This record in other databases:    

Please use a persistent id in citations: doi:10.1261/rna.066464.118

Abstract: Structural information about protein-RNA complexes supports the understanding of crucial recognition processes in the cell, and it can allow the development of high affinity ligands to interfere with these processes. In this respect, the identification of amino acid hotspots is particularly important. In contrast to protein-protein interactions, in silico approaches for protein-RNA interactions lag behind in their development. Herein, we report an analysis of available protein-RNA structures. We assembled a data set of 322 crystal and NMR structures and analyzed them regarding interface properties. In addition, we describe a computational alanine-scanning approach which provides interaction scores for interface amino acids, allowing the identification of potential hotspots in protein-RNA interfaces. We have made the computational approach available as an online tool, which allows interaction scores to be calculated for any structure of a protein-RNA complex by uploading atomic coordinates to the PRI HotScore web server (https://pri-hotscore.labs.vu.nl).

Keyword(s): Alanine: chemistry (MeSH) ; Amino Acids: chemistry (MeSH) ; Binding Sites (MeSH) ; Magnetic Resonance Spectroscopy (MeSH) ; Nucleic Acid Conformation (MeSH) ; Protein Binding (MeSH) ; Protein Conformation (MeSH) ; Protein Interaction Mapping (MeSH) ; RNA: chemistry (MeSH) ; RNA: metabolism (MeSH) ; RNA-Binding Proteins: chemistry (MeSH) ; RNA-Binding Proteins: metabolism (MeSH) ; Structure-Activity Relationship (MeSH) ; Amino Acids ; RNA-Binding Proteins ; RNA ; Alanine

---

Contributing Institute(s):

1. Epigenetics and Systems Medicine in Neurodegenerative Diseases (AG Fischer 1)

Research Program(s):

1. 342 - Disease Mechanisms and Model Systems (POF3-342) (POF3-342)

Appears in the scientific report 2018

---

Database coverage:
; BIOSIS Previews ; Clarivate Analytics Master Journal List ; Current Contents - Life Sciences ; IF >= 5 ; JCR ; SCOPUS ; Web of Science Core Collection

---